# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7-scores hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.cse.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 2bcoA 350 4.69e-33 1yw4A 341 5.43e-30 1qmuA 380 1.37e-04 1qmuA b.3.2.1,c.56.5.1 22534,33827 1h8lA 380 1.75e-04 b.3.2.1,c.56.5.1 65737,65738 2bo9A 308 4.56e-04 2c1cA 312 1.98e-03 1jqgA 433 1.27e-02 c.56.5.1,d.58.3.1 71791,71792 1dtdA 303 2.40e-02 1aye c.56.5.1 33823 1h4pA 408 3.73e-02 c.1.8.3 90617 1aye 401 5.23e-02 1aye c.56.5.1,d.58.3.1 33824,39065 1m4lA 307 7.93e-02 c.56.5.1 78604 2ctc 307 8.83e-02 1aye c.56.5.1 33802 1yme 309 1.18e-01 1aye c.56.5.1 33804 2ctb 307 1.25e-01 1aye c.56.5.1 33803 6cpa 307 1.35e-01 1aye c.56.5.1 33816 1bavA 309 1.63e-01 1aye c.56.5.1 33806 1jv1A 505 5.23e-01 c.68.1.5 71892 1eqcA 394 6.81e-01 1cz1A c.1.8.3 28811 1cz1A 394 6.84e-01 1cz1A c.1.8.3 28839 1db3A 372 8.47e-01 1db3A c.2.1.2 29813 1xovA 326 1.32e+00 1jwqA 179 1.42e+00 c.56.5.6 90921 1vm8A 534 1.61e+00 2f9cA 334 2.10e+00 1ycsB 239 2.13e+00 1ycsB d.211.1.1,b.34.2.1 19155,24553 1z5rA 306 2.63e+00 1eugA 229 3.69e+00 3eugA c.18.1.1 31021 2hdhA 293 3.93e+00 2hdhA a.100.1.3,c.2.1.6 18795,30199 1euiA 228 4.73e+00 3eugA c.18.1.1 31028 3eugA 229 4.74e+00 3eugA c.18.1.1 31018 2aqjA 538 4.87e+00 1kwmA 402 6.00e+00 c.56.5.1,d.58.3.1 73079,73080 4eugA 229 6.05e+00 3eugA c.18.1.1 31019 1c9oA 66 6.15e+00 1mjc b.40.4.5 25325 1c0aA 585 6.78e+00 1c0aA b.40.4.1,d.74.4.1,d.104.1.1 25246,39731,40767 1se8A 301 7.49e+00 b.40.4.3 105448 1flzA 228 7.57e+00 3eugA c.18.1.1 31027 1f0yA 302 7.63e+00 2hdhA a.100.1.3,c.2.1.6 18793,30197 1csp 67 8.52e+00 1mjc b.40.4.5 25321 1iqaA 160 8.77e+00 b.22.1.1 71274 1t0iA 191 9.17e+00 c.23.5.4 106209 1wh0A 134 1.06e+01 1q74A 303 1.16e+01 c.134.1.1 96019 1jrkA 156 1.18e+01 d.113.1.1 71827 1bvp1 349 1.21e+01 1bvp1 1gpmA 525 1.26e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1jjuA 489 1.36e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 66774,66775,66776,66777,66778 1ki9A 192 1.44e+01 c.37.1.1 84404 1s55A 156 1.46e+01 1k2eA 156 1.54e+01 d.113.1.1 72010 1pbyA 489 1.57e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 94417,94418,94419,94420,94421 1x1nA 524 1.61e+01 1k26A 156 1.61e+01 d.113.1.1 72003 2fhpA 187 1.97e+01 1nc5A 373 2.01e+01 a.102.1.6 85548 1b8aA 438 2.05e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1x0vA 354 2.18e+01 1nnhA 294 2.21e+01 d.104.1.1 92005 1wjnA 97 2.29e+01 1ruwA 69 2.30e+01 3ullA 132 2.32e+01 3ullA b.40.4.3 25282 2booA 247 2.41e+01 1jdqA 98 2.60e+01 d.68.3.3 66559 1x1mA 107 2.62e+01 1ekrA 161 2.92e+01 1ekrA d.58.21.1 39380 1k77A 260 3.08e+01 c.1.15.5 72096 2mprA 421 3.15e+01 2mprA f.4.3.2 43788 2a35A 215 3.17e+01 1vd5A 377 3.19e+01 a.102.1.7 108518 1mfgA 95 3.21e+01 b.36.1.1 79043 1aohB 147 3.29e+01 1aohA b.2.2.2 22402 1ummA 172 3.38e+01 a.3.1.1 107958 1tdj 514 3.43e+01 1tdj c.79.1.1,d.58.18.2,d.58.18.2 35297,39356,39357 2c8sA 172 3.44e+01 1aohA 147 3.45e+01 1aohA b.2.2.2 22401 2b7oA 464 3.46e+01 1jvbA 347 3.61e+01 b.35.1.2,c.2.1.1 77181,77182 1p9bA 442 3.61e+01 c.37.1.10 94385 1yp5A 58 3.69e+01 1etpA 190 3.69e+01 1etpA a.3.1.4,a.3.1.4 15962,15963 2d81A 318 3.98e+01 1qspA 165 3.98e+01 1qspA a.24.10.2 16639 1y13A 181 4.02e+01 1h8mA 140 4.12e+01 1h8mA d.110.4.1 60782 1hdoA 206 4.12e+01 1he2A c.2.1.2 60965 1yqeA 282 4.16e+01 2tdt 274 4.19e+01 3tdt b.81.1.2 28054 3tdt 274 4.23e+01 3tdt b.81.1.2 28053 1af6A 421 4.23e+01 2mprA f.4.3.2 43772 1hu3A 260 4.26e+01 1hu3A a.118.1.14 19137 1jhfA 202 4.27e+01 a.4.5.2,b.87.1.1 63057,63058 1m70A 190 4.27e+01 a.3.1.4,a.3.1.4 91200,91201 1t3kA 152 4.30e+01 c.46.1.1 106357 1ha3A 405 4.33e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1mal 421 4.35e+01 2mprA f.4.3.2 43784 1kgqA 274 4.35e+01 b.81.1.2 72447 1bjx 110 4.39e+01 1bjx c.47.1.2 32774 2bjxA 110 4.39e+01 1bjx c.47.1.2 32776 1gqeA 365 4.42e+01 e.38.1.1 70351 1anu 138 4.54e+01 1aohA b.2.2.2 22403 1he2A 206 4.67e+01 1he2A c.2.1.2 60966 1y9aA 360 4.79e+01 1d6mA 653 4.79e+01 1d6mA e.10.1.1 43248 1e58A 249 4.79e+01 1qhfA c.60.1.1 59262 1nonA 179 5.01e+01 c.61.1.1 103868 1tdtA 259 5.07e+01 3tdt b.81.1.2 28055 1jqeA 292 5.09e+01 c.66.1.19 71789 1l3iA 192 5.12e+01 c.66.1.22 77676 1z77A 200 5.57e+01 1cjcA 460 5.66e+01 1cjcA c.3.1.1,c.4.1.1 30319,30604 1o4tA 133 5.79e+01 b.82.1.9 86622 1yb0A 159 5.82e+01 1m98A 317 5.89e+01 a.175.1.1,d.17.4.6 78866,78867 1th0A 226 5.93e+01 d.3.1.7 106903 1yqfA 203 5.99e+01 1is2A 661 6.14e+01 a.29.3.2,a.29.3.2,e.6.1.2 71382,71383,71384 2cs2A 134 6.14e+01 1hdcA 253 6.22e+01 1e6wA c.2.1.2 29862 1qwrA 319 6.25e+01 b.82.1.3 96491 2bv9A 290 6.26e+01 1d1nA 99 6.37e+01 1d1nA b.43.3.1 25718 1ivnA 190 6.47e+01 c.23.10.5 83719 1afrA 345 6.59e+01 1afrA a.25.1.2 16805 1xznA 179 6.67e+01 1i7dA 659 7.00e+01 1d6mA e.10.1.1 61886 1ouoA 210 7.00e+01 d.4.1.6 93554 2citA 282 7.01e+01 1zud1 251 7.04e+01 1gxmA 332 7.05e+01 a.102.5.1 76371 1zbqA 327 7.09e+01 1wxxA 382 7.34e+01 1rlkA 117 7.38e+01 c.131.1.1 97651 1lrzA 426 7.49e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1qq5A 253 7.52e+01 1qq5A c.108.1.1 43327 1wyuB 474 7.54e+01 1sjgA 112 7.63e+01 b.33.1.1 105647 1oafA 261 7.72e+01 a.93.1.1 86734 1ixxA 129 7.72e+01 1ixxB d.169.1.1 42335 2hsdA 253 7.72e+01 1e6wA c.2.1.2 29866 1jdbB 1073 7.81e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18574,31503,31705,31706,41550,41551 1a3c 181 7.95e+01 1a3c c.61.1.1 34095 1qfmA 710 7.96e+01 1qfmA b.69.7.1,c.69.1.4 27673,34641 1keeC 1073 7.99e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 68500,68501,68502,68503,68504,68505 1z9lA 128 8.01e+01 1azsC 388 8.02e+01 1cipA a.66.1.1,c.37.1.8 18203,32086 1b6g 310 8.10e+01 1b6g c.69.1.8 34661 1b5l 172 8.13e+01 1b5l a.26.1.3 16900 1ivwA 638 8.13e+01 b.30.2.1,d.17.2.1,d.17.2.1 71456,71457,71458 1obr 326 8.24e+01 1aye c.56.5.2 33828 1rkxA 357 8.26e+01 c.2.1.2 97631 1w9sA 142 8.30e+01 1vypX 364 8.62e+01 c.1.4.1 108905 3grs 478 8.78e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30441,30442,40152 1qq7A 253 8.79e+01 1qq5A c.108.1.1 43329 1rzhH 260 8.81e+01 b.41.1.1,f.23.10.1 98162,98163 1keeG 1073 8.94e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 68516,68517,68518,68519,68520,68521